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Sample GSM4720705 Query DataSets for GSM4720705
Status Public on Aug 12, 2020
Title MS_Silique
Sample type SRA
 
Source name Silique tissue-normal
Organism Moricandia suffruticosa
Characteristics tissue: silique
treatment: non-treated
Treatment protocol Drought treatment: One replicate was drought (withdrawing water) treated for 3 days. Heat treatment: Treated at the temperature of 40 °C for 3 hours.
Growth protocol Grown for 35 days in soil in a chamber set with temperature of 25 °C and humidity of 60% in 16 h light
Extracted molecule polyA RNA
Extraction protocol The tissues were homogenized in liquid nitrogen. Then RNA was isolated using an RNA extraction kit (Takara, Dalian), according to the manufacturer’s instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing sequencing was conducted on Hiseq 2500 platform
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Darmor-bzh whole genome using hisat2
Clean reads of MS samples were de novo togeter by Trinity software with K-mer value of 31. And the unigenes were generated by the TGICL package to exclude redundant data.
FPKM (fragments per kilobase of exon per million) and TPM (transcripts per million) are used to measure gene or transcript expression levels
Genome_build: Darmor-bzh
Supplementary_files_format_and_content: tab-delimited text files include FPKM/TPM values for each Sample
 
Submission date Aug 11, 2020
Last update date Aug 12, 2020
Contact name Hongfang Liu
E-mail(s) liuhongfang01@caas.cn
Organization name OCRI
Street address Tuanjie Road
City WuHan
ZIP/Postal code 430062
Country China
 
Platform ID GPL22478
Series (1)
GSE156029 Transcriptome-wide analysis of differential response to drought and heat stress in Moricandia suffruticosa and Brassica napus
Relations
BioSample SAMN15786473
SRA SRX8925508

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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